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(Structural fixation: A collective, contextually induced obsession that becomes a temporary locus of greed, competition, and envy).
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Using the updated temporary database of RAD loci, polymorphic duplicated loci were identified based on two haploid families.
These loci formed the temporary reference database of RAD loci, and they were retained for further screening.
Our findings identify river floodplains as periodic, temporary, yet potentially important, loci of biogeochemical transformation in which contaminants may undergo change during limited periods of the hydrologic record.
This creates temporary LD with nearby loci.
Loci in the temporary database that corresponded to repeat regions and loci containing repeat units were removed using two alignment-based strategies following the protocol of Brieuc et al. (2014).
First, loci in the temporary database were aligned against themselves using BOWTIE (Langmead et al. 2009) by allowing a maximum of three nucleotide mismatches per locus.
First, loci within the temporary database were aligned against themselves using B owtie 0.12.9 (Langmead et al. 2009), allowing up to three nucleotide mismatches.
After conducting a B last search of the temporary database against itself, 1451 loci did not have a BLAST result or the best hit was not itself, mostly due to the presence of repetitive units in the sequence (data not shown).
After performing the BLAST search of the temporary reference database against itself, 2085 loci did not return a match or the best match score was not the locus itself.
It was possible that these loci contained repeat sequences; therefore, these loci were also removed from the temporary reference database.
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CEO of Professional Science Editing for Scientists @ prosciediting.com